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Chlorine in PDB 5nay: Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1

Protein crystallography data

The structure of Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1, PDB code: 5nay was solved by P.Casino, A.Marina, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 57.12 / 1.80
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 94.851, 127.045, 130.543, 90.00, 90.00, 90.00
R / Rfree (%) 17.6 / 19.9

Chlorine Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Chlorine atom in the Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1 (pdb code 5nay). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 12 binding sites of Chlorine where determined in the Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1, PDB code: 5nay:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Chlorine binding site 1 out of 12 in 5nay

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Chlorine binding site 1 out of 12 in the Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl301

b:14.6
occ:1.00
 O A:HOH434 3.1 14.0 1.0
N A:ASP78 3.3 12.3 1.0
N A:ARG76 3.4 13.9 1.0
C A:ARG76 3.5 13.7 1.0
C A:ALA74 3.6 13.9 1.0
NH2 D:ARG179 3.6 19.9 1.0
O A:ARG76 3.6 14.5 1.0
CA A:GLY178 3.7 13.2 1.0
CA A:ALA74 3.7 13.8 1.0
N A:ASN77 3.7 13.4 1.0
N A:SER75 3.7 13.7 1.0
CA A:ARG76 4.0 13.8 1.0
O D:HOH410 4.0 15.3 1.0
CB A:ASP78 4.0 12.4 1.0
O A:ALA74 4.1 14.5 1.0
CA A:ASP78 4.1 11.9 1.0
CA A:ASN77 4.2 13.1 1.0
CE A:MET60 4.2 11.6 1.0
C A:ASN77 4.2 12.7 1.0
N A:GLY178 4.3 13.0 1.0
O A:ASP78 4.3 11.5 1.0
C A:GLY178 4.4 13.7 1.0
C A:SER75 4.5 14.3 1.0
O A:HOH425 4.5 13.0 1.0
N A:ALA74 4.6 13.8 1.0
CA A:SER75 4.6 14.1 1.0
CB A:ARG76 4.6 13.6 1.0
C A:ASP78 4.6 11.5 1.0
CB A:ALA74 4.6 13.4 1.0
CG A:ASP78 4.7 12.9 1.0
O A:HOH439 4.7 11.7 1.0
OD2 A:ASP78 4.7 13.7 1.0
CG A:MET60 4.9 11.7 1.0
CZ D:ARG179 4.9 19.0 1.0
SD A:MET60 5.0 11.8 1.0
N A:ARG179 5.0 14.0 1.0

Chlorine binding site 2 out of 12 in 5nay

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Chlorine binding site 2 out of 12 in the Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl302

b:16.8
occ:1.00
 OH A:TYR189 3.2 14.2 1.0
N F:ALA186 3.2 13.7 1.0
O F:HOH476 3.3 23.1 1.0
ND2 C:ASN66 3.3 15.4 1.0
O C:HOH482 3.6 20.4 1.0
CE1 A:TYR189 3.7 14.4 1.0
CB F:ALA186 3.7 14.0 1.0
CE1 C:PHE64 3.8 15.6 1.0
CD2 F:TYR185 3.9 13.5 1.0
CZ A:TYR189 3.9 14.5 1.0
CA F:TYR185 3.9 13.4 1.0
C F:TYR185 4.0 13.7 1.0
CA F:ALA186 4.1 13.9 1.0
CB F:TYR185 4.1 13.5 1.0
O C:HOH490 4.3 28.1 1.0
CG C:ASN66 4.3 15.9 1.0
CB C:ASN66 4.3 15.8 1.0
OD1 C:ASN72 4.3 16.1 1.0
CG F:TYR185 4.4 13.4 1.0
CZ C:PHE64 4.6 15.3 1.0
CD1 C:PHE64 4.7 15.2 1.0
O F:HOH444 4.8 17.4 1.0
CE2 F:TYR185 4.9 13.5 1.0
CD1 A:TYR189 4.9 14.4 1.0

Chlorine binding site 3 out of 12 in 5nay

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Chlorine binding site 3 out of 12 in the Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl303

b:17.9
occ:1.00
 OH F:TYR189 3.1 15.1 1.0
N A:ALA186 3.2 13.5 1.0
ND2 D:ASN66 3.3 15.7 1.0
O A:HOH504 3.4 21.7 1.0
O D:HOH499 3.5 15.9 1.0
CB A:ALA186 3.7 14.0 1.0
CE1 F:TYR189 3.7 14.7 1.0
CD2 A:TYR185 3.8 14.7 1.0
CE1 D:PHE64 3.9 15.3 1.0
CZ F:TYR189 3.9 14.8 1.0
CA A:TYR185 3.9 13.7 1.0
CA A:ALA186 4.0 13.8 1.0
C A:TYR185 4.0 13.4 1.0
CB A:TYR185 4.1 14.2 1.0
CG D:ASN66 4.3 16.0 1.0
CB D:ASN66 4.3 15.4 1.0
CG A:TYR185 4.4 14.2 1.0
OD1 D:ASN72 4.6 17.0 1.0
CZ D:PHE64 4.7 15.1 1.0
CD1 D:PHE64 4.8 15.3 1.0
CE2 A:TYR185 4.9 14.8 1.0
O A:HOH444 4.9 22.4 1.0
CD1 F:TYR189 4.9 14.9 1.0

Chlorine binding site 4 out of 12 in 5nay

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Chlorine binding site 4 out of 12 in the Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl304

b:16.1
occ:1.00
 N D:ALA186 3.2 13.4 1.0
OH B:TYR189 3.2 14.7 1.0
O D:HOH478 3.3 26.5 1.0
ND2 A:ASN66 3.4 16.5 1.0
O A:HOH497 3.5 14.6 1.0
CE1 B:TYR189 3.7 14.6 1.0
CB D:ALA186 3.7 14.2 1.0
CD2 D:TYR185 3.9 13.2 1.0
CE1 A:PHE64 3.9 14.5 1.0
CZ B:TYR189 3.9 14.6 1.0
CA D:TYR185 3.9 13.5 1.0
C D:TYR185 4.1 13.6 1.0
CA D:ALA186 4.1 13.8 1.0
CB D:TYR185 4.1 13.5 1.0
CB A:ASN66 4.3 16.1 1.0
CG A:ASN66 4.3 16.8 1.0
OD1 A:ASN72 4.4 14.6 1.0
CG D:TYR185 4.5 13.3 1.0
CZ A:PHE64 4.7 14.4 1.0
O D:HOH442 4.8 16.9 1.0
CD1 A:PHE64 4.8 14.4 1.0
CE2 D:TYR185 4.8 13.2 1.0
CD1 B:TYR189 4.9 14.4 1.0

Chlorine binding site 5 out of 12 in 5nay

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Chlorine binding site 5 out of 12 in the Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl301

b:16.7
occ:1.00
 O B:HOH410 3.1 14.5 1.0
N B:ARG76 3.3 16.7 1.0
N B:ASP78 3.4 14.2 1.0
C B:ARG76 3.4 16.7 1.0
O B:ARG76 3.4 17.6 1.0
C B:ALA74 3.6 16.2 1.0
CA B:GLY178 3.6 15.0 1.0
NH2 E:ARG179 3.6 19.8 1.0
CA B:ALA74 3.7 16.0 1.0
N B:SER75 3.7 16.2 1.0
N B:ASN77 3.8 15.6 1.0
O E:HOH432 3.9 22.1 1.0
CA B:ARG76 3.9 16.4 1.0
CB B:ASP78 4.1 14.2 1.0
O B:ALA74 4.1 16.7 1.0
CA B:ASP78 4.1 13.8 1.0
N B:GLY178 4.3 14.6 1.0
CA B:ASN77 4.3 15.3 1.0
CE B:MET60 4.3 14.8 1.0
C B:ASN77 4.3 14.9 1.0
O B:ASP78 4.4 13.6 1.0
C B:SER75 4.4 16.7 1.0
C B:GLY178 4.4 15.8 1.0
O B:HOH452 4.5 14.8 1.0
N B:ALA74 4.5 15.9 1.0
CB B:ARG76 4.5 16.2 1.0
CA B:SER75 4.6 16.6 1.0
C B:ASP78 4.7 13.4 1.0
O B:HOH449 4.7 13.6 1.0
CB B:ALA74 4.7 15.8 1.0
CG B:ASP78 4.7 14.8 1.0
OD2 B:ASP78 4.8 15.4 1.0
CG B:MET60 4.8 14.3 1.0
N B:ARG179 4.9 15.7 1.0
CZ E:ARG179 4.9 19.6 1.0

Chlorine binding site 6 out of 12 in 5nay

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Chlorine binding site 6 out of 12 in the Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl302

b:17.6
occ:1.00
 OH C:TYR189 3.2 14.7 1.0
N E:ALA186 3.3 13.8 1.0
O E:HOH475 3.3 21.8 1.0
O B:HOH500 3.4 18.7 1.0
ND2 B:ASN66 3.4 16.3 1.0
CE1 C:TYR189 3.7 15.2 1.0
CE1 B:PHE64 3.8 15.3 1.0
CD2 E:TYR185 3.8 13.4 1.0
CB E:ALA186 3.8 14.2 1.0
CA E:TYR185 3.9 13.3 1.0
CZ C:TYR189 4.0 15.0 1.0
CB E:TYR185 4.0 13.3 1.0
C E:TYR185 4.1 13.6 1.0
CA E:ALA186 4.2 14.2 1.0
O B:HOH508 4.3 36.7 1.0
CB B:ASN66 4.3 16.1 1.0
CG B:ASN66 4.4 16.5 1.0
CG E:TYR185 4.4 13.3 1.0
OD1 B:ASN72 4.4 16.0 1.0
CZ B:PHE64 4.6 15.2 1.0
CD1 B:PHE64 4.8 15.2 1.0
O E:HOH458 4.8 18.7 1.0
CE2 E:TYR185 4.8 13.3 1.0
CD1 C:TYR189 5.0 14.8 1.0

Chlorine binding site 7 out of 12 in 5nay

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Chlorine binding site 7 out of 12 in the Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl303

b:16.9
occ:1.00
 O B:HOH480 3.3 31.6 1.0
N B:ALA186 3.3 14.8 1.0
OH D:TYR189 3.3 14.9 1.0
ND2 E:ASN66 3.3 16.0 1.0
O E:HOH437 3.5 17.8 1.0
CE1 D:TYR189 3.7 15.1 1.0
CE1 E:PHE64 3.8 15.7 1.0
CB B:ALA186 3.8 15.1 1.0
CD2 B:TYR185 3.8 15.7 1.0
CA B:TYR185 3.9 15.2 1.0
CZ D:TYR189 4.0 15.0 1.0
CB B:TYR185 4.0 15.2 1.0
C B:TYR185 4.1 14.8 1.0
CA B:ALA186 4.1 14.8 1.0
CG E:ASN66 4.3 16.2 1.0
CB E:ASN66 4.3 15.8 1.0
ND2 E:ASN72 4.3 15.2 1.0
CG B:TYR185 4.4 15.5 1.0
CZ E:PHE64 4.6 15.5 1.0
CD1 E:PHE64 4.7 15.5 1.0
O B:HOH479 4.8 17.6 1.0
CE2 B:TYR185 4.8 15.9 1.0
CD1 D:TYR189 5.0 14.9 1.0

Chlorine binding site 8 out of 12 in 5nay

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Chlorine binding site 8 out of 12 in the Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 8 of Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl301

b:16.6
occ:1.00
 N C:ALA186 3.2 13.6 1.0
OH E:TYR189 3.3 14.2 1.0
ND2 F:ASN66 3.4 14.7 1.0
O F:HOH450 3.4 16.1 1.0
CE1 E:TYR189 3.7 14.1 1.0
CB C:ALA186 3.8 13.8 1.0
CE1 F:PHE64 3.8 15.1 1.0
CD2 C:TYR185 3.8 13.1 1.0
CA C:TYR185 3.9 13.4 1.0
CZ E:TYR189 4.0 14.1 1.0
CB C:TYR185 4.1 13.2 1.0
C C:TYR185 4.1 13.2 1.0
CA C:ALA186 4.1 13.8 1.0
CB F:ASN66 4.3 15.4 1.0
CG F:ASN66 4.3 15.5 1.0
ND2 F:ASN72 4.4 14.8 1.0
CG C:TYR185 4.4 13.3 1.0
CZ F:PHE64 4.6 15.1 1.0
CD1 F:PHE64 4.7 15.1 1.0
O C:HOH459 4.8 18.3 1.0
CE2 C:TYR185 4.8 13.4 1.0
CD1 E:TYR189 4.9 14.0 1.0

Chlorine binding site 9 out of 12 in 5nay

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Chlorine binding site 9 out of 12 in the Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 9 of Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl302

b:15.6
occ:1.00
 O C:HOH413 3.2 15.0 1.0
N C:ASP78 3.3 12.2 1.0
N C:ARG76 3.4 13.9 1.0
C C:ARG76 3.5 13.7 1.0
O C:ARG76 3.6 14.5 1.0
CA C:GLY178 3.6 13.7 1.0
NH2 F:ARG179 3.6 21.4 1.0
C C:ALA74 3.7 14.2 1.0
N C:ASN77 3.7 13.1 1.0
N C:SER75 3.7 14.2 1.0
CA C:ALA74 3.7 14.0 1.0
CA C:ARG76 3.9 13.7 1.0
CB C:ASP78 4.0 12.5 1.0
O F:HOH445 4.0 19.3 1.0
CA C:ASP78 4.1 12.2 1.0
CA C:ASN77 4.2 12.8 1.0
O C:ALA74 4.2 14.6 1.0
N C:GLY178 4.2 13.1 1.0
CE C:MET60 4.2 11.4 1.0
C C:ASN77 4.2 12.6 1.0
O C:ASP78 4.3 11.9 1.0
C C:GLY178 4.4 14.1 1.0
C C:SER75 4.4 14.4 1.0
O C:HOH452 4.5 12.6 1.0
CB C:ARG76 4.5 13.3 1.0
N C:ALA74 4.6 13.8 1.0
CA C:SER75 4.6 14.3 1.0
C C:ASP78 4.6 11.8 1.0
CG C:ASP78 4.7 13.0 1.0
O C:HOH427 4.7 11.4 1.0
OD2 C:ASP78 4.8 13.8 1.0
CB C:ALA74 4.8 13.7 1.0
CG C:MET60 4.8 11.7 1.0
CZ F:ARG179 4.9 20.1 1.0
N C:ARG179 4.9 14.5 1.0
SD C:MET60 4.9 12.1 1.0

Chlorine binding site 10 out of 12 in 5nay

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Chlorine binding site 10 out of 12 in the Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 10 of Crystal Structures of Homooligomers of Collagen Type IV. ALPHA1NC1 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl301

b:17.0
occ:1.00
 O D:HOH412 3.1 16.5 1.0
N D:ASP78 3.3 12.7 1.0
N D:ARG76 3.3 15.1 1.0
C D:ARG76 3.4 14.3 1.0
O D:ARG76 3.5 14.5 1.0
CA D:GLY178 3.5 13.7 1.0
NH2 A:ARG179 3.7 18.3 1.0
C D:ALA74 3.7 14.8 1.0
N D:ASN77 3.7 13.3 1.0
CA D:ALA74 3.8 14.6 1.0
N D:SER75 3.8 15.2 1.0
O A:HOH477 3.8 15.3 1.0
CA D:ARG76 3.9 14.5 1.0
CB D:ASP78 4.0 12.8 1.0
CA D:ASP78 4.1 12.6 1.0
N D:GLY178 4.1 12.9 1.0
O D:ALA74 4.2 15.3 1.0
CA D:ASN77 4.2 13.3 1.0
CE D:MET60 4.2 12.8 1.0
C D:ASN77 4.2 13.1 1.0
O D:ASP78 4.3 12.3 1.0
C D:GLY178 4.3 14.0 1.0
C D:SER75 4.4 15.7 1.0
O D:HOH457 4.5 13.4 1.0
CB D:ARG76 4.5 14.4 1.0
C D:ASP78 4.6 12.1 1.0
N D:ALA74 4.6 14.2 1.0
CA D:SER75 4.6 15.3 1.0
CG D:ASP78 4.7 13.6 1.0
O D:HOH439 4.7 11.3 1.0
CB D:ALA74 4.8 14.3 1.0
OD2 D:ASP78 4.8 14.2 1.0
N D:ARG179 4.8 14.5 1.0
CG D:MET60 4.9 12.6 1.0
SD D:MET60 5.0 13.0 1.0
CZ A:ARG179 5.0 18.3 1.0

Reference:

P.Casino, R.Gozalbo-Rovira, J.Rodriguez-Diaz, S.Banerjee, A.Boutaud, V.Rubio, B.G.Hudson, J.Saus, J.Cervera, A.Marina. Structures of Collagen IV Globular Domains: Insight Into Associated Pathologies, Folding and Network Assembly. Iucrj V. 5 765 2018.
ISSN: ESSN 2052-2525
PubMed: 30443360
DOI: 10.1107/S2052252518012459
Page generated: Fri Jul 26 13:22:55 2024

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